Copy Number
The putative cancer-associated PDGs driven by SCNAs in each cancer type were identified by four criteria: 1) located in a peak region of a significantly recurrent focal SNCA locus estimated by the genomic identification of significant targets in cancer (GISTIC2) algorithm, (q≤0.25); 2) altered with high frequency and large amplitude (G-score ≥0.1); 3) mRNA reliably detected in at least 10% of tumor specimens in the given cancer type (90th percentile of FPKM value ≥1); and 4) mRNA significantly and positively correlated with copy numbers (Pearson P-value less than 0.001).
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| Overall_Gscore | No. of Cancer Types | ||||
| HGNC Symbol | Ensembl Gene ID | Amplification | Deletion | Amplification | Deletion |
| MAP3K1 | ENSG00000095015 | 0.00 | 0.24 | 0 | 1 |
| NMUR1 | ENSG00000171596 | 0.00 | 0.00 | 0 | 0 |
| SCN7A | ENSG00000136546 | 0.00 | 0.00 | 0 | 0 |
| PRDM2 | ENSG00000116731 | 0.14 | 1.94 | 1 | 5 |
| SLC25A30 | ENSG00000174032 | 0.00 | 0.92 | 0 | 4 |
| ANOS1 | ENSG00000011201 | 0.00 | 0.00 | 0 | 0 |
| CALCRL | ENSG00000064989 | 0.00 | 0.00 | 0 | 0 |
| PAK4 | ENSG00000130669 | 0.77 | 0.00 | 1 | 0 |
| RPS6KC1 | ENSG00000136643 | 0.00 | 0.37 | 0 | 2 |
| C4BPB | ENSG00000123843 | 0.00 | 0.00 | 0 | 0 |
| PKN2 | ENSG00000065243 | 0.00 | 0.44 | 0 | 2 |
| ZGPAT | ENSG00000197114 | 0.92 | 0.00 | 5 | 0 |
| WNT10B | ENSG00000169884 | 0.00 | 0.00 | 0 | 0 |
| ADGRL2 | ENSG00000117114 | 0.00 | 0.00 | 0 | 0 |
| SLC2A12 | ENSG00000146411 | 0.00 | 0.00 | 0 | 0 |
| EPHA4 | ENSG00000116106 | 0.00 | 0.37 | 0 | 2 |
| COL17A1 | ENSG00000065618 | 0.00 | 0.00 | 0 | 0 |
| IL10RA | ENSG00000110324 | 0.00 | 0.23 | 0 | 1 |
| EPYC | ENSG00000083782 | 0.00 | 0.00 | 0 | 0 |
| TNFRSF14 | ENSG00000157873 | 0.00 | 0.84 | 0 | 4 |
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